ggpubr: ggplot2 Based Publication Ready Plots
2023年2月10日 Facet a ggplot into Multiple Panels. Description. Create multi-panel ... # Box plot with multiple groups. # +++++++++++++++++++++. # fill or ...
Package ggpubr
2018年11月15日 Facet a ggplot into Multiple Panels. Description. Create multi-panel ... # Box plot with multiple groups. # +++++++++++++++++++++. # fill or ...
ggplot2: Create Elegant Data Visualisations Using the Grammar of
2023年10月12日 # Stacking multiple groups with different fill ggplot(mtcars
Great Data Visualization in R
4.7 Create a boxplot with multiple groups . 15.4 Multiple panels figure using ggplot facet . . . . . . . . . . . . . . . . . . . . . . . 72. 15.5 Combine ...
ggbeeswarm package usage example (version 0.7.2)
Keywords: visualization display
Learning R
MEDIANS are approximately equal across multiple groups. 72 / 101. Page 73 boxplot. 78 / 101. Page 79. Plotting with ggplot2 - Boxplots. Notice that order ...
Data Visualization
ggplot2: boxplot with points geom_jitter plots points “jittered” with noise You can also do multiple factors with + on the right hand side sub %>% ggplot ...
Chapter 2 R ggplot2 Examples
2014年2月5日 The with() command is useful when we want to refer to variables multiple times in the same ... software packages) use boxplots to summarize single ...
dittoSeq: User Friendly Single-Cell and Bulk RNA Sequencing
a ggplot object where dots of different colors and sizes summarize continuous data for multiple features (columns) per multiple groups (rows). Alternatively
40 years of boxplots
2010年12月9日 Figure 1: A boxplot of price grouped by color allows easy comparison of medians across multiple color groups. Since boxplots made their ...
ggplot2: Create Elegant Data Visualisations Using the Grammar of
2022?5?3? 'geom-blank.r' 'geom-boxplot.r' 'geom-col.r' 'geom-path.r' ... often especially when a plot graphs more than two variables. Colour and fill.
Data Visualization with ggplot2 : : CHEAT SHEET
Each function returns a layer. TWO VARIABLES continuous x continuous y e <- ggplot(mpg
ggpubr.pdf
2020?6?27? Description The 'ggplot2' package is excellent and flexible for elegant data ... Used to adjust position for multiple groups.
grafify: Easy Graphs for Data Visualisation and Linear Models for
2022?5?30? Matched data from two groups where difference between them is con- sistent. Description ... Boxplot geometry uses geom_boxplot with position ...
R Graphics Essentials for Great Data Visualization: +200 Practical
R comes with several demo data sets for playing with R functions. The most Initialize a ggplot ggplot(). Scatter plot geom_point(). Box plot.
Package ggpubr
2016?7?20? Description 'ggplot2' is an excellent and flexible package for ... If TRUE make a notched box plot. ... Box plot with multiple groups.
Chapter 2 R ggplot2 Examples
2014?2?5? software packages) use boxplots to summarize single variables ggplot2 by construction only uses box plots for comparing two or more ...
Package ggpubr
2017?6?6? Description 'ggplot2' is an excellent and flexible package for elegant data ... Used to adjust position for multiple groups.
R Handouts 2019-20 Data Visualization with ggplot2
R handout Spring 2020 Data Visualization w ggplot2.docx Multiple Variable Graphs … ... Continuous by Group (Discrete): Side-by-side Box Plot …
Boxplots for grouped and clustered data in toxicology
reveal that there is a difference between the two groups: their quartiles and boxplots with additional elements is straightforward using the ggplot2 ...
Data Visualization with ggplot2 : : CHEAT SHEET
ggplot2 is based on the grammar of graphics the idea that you can build every graph from the same components: a data set a coordinate system and geoms—visual marks that represent data points Basics GRAPHICAL PRIMITIVES a + geom_blank() (Useful for expanding limits)
GGPlot2 Essentials - Datanovia
GGPlot2 is a powerful and a flexible R package implemented by Hadley Wickham for pro- ducing elegant graphics piece by piece ggplot2 has become a popular package for data visualization The official documentation of the package is available at: https://ggplot2 tidyverse org/reference/
The ultimate guide to the ggplot boxplot - Sharp Sight
Title Implementation of the Q-Q Boxplot Version 0 3 0 Description A system to implement the Q-Q boxplot It is implemented as an extension to 'ggplot2' The Q-Q boxplot is an amalgam of the boxplot and the Q-Q plot and allows the user to rapidly examine summary statistics and tail behavior for multiple distributions in the same pane As an
Data visualization with ggplot2 : : CHEAT SHEET - GitHub
ggplot2 is based on the grammar of graphics the idea that you can build every graph from the same components: a data set a coordinate system and b geoms—visual marks that represent data points Basics GRAPHICAL PRIMITIVES a + geom_blank() and a + expand_limits() Ensure limits include values across all plots
ggplot2: Create Elegant Data Visualisations Using the Grammar
Package ‘ggplot2’ April 3 2023 Version 3 4 2 Title Create Elegant Data Visualisations Using the Grammar of Graphics Description A system for 'declaratively' creating graphics based on ``The Grammar of Graphics'' You provide the data tell 'ggplot2' how to map variables to aesthetics what graphical primitives to use and it
Searches related to ggplot2 boxplot multiple groups filetype:pdf
This document introduces many examples of R code using the ggplot2 library to accompany Chapter 2 of the Lock 5 textbook The primary data set used is from the student survey of this course but some plots are shown that use textbook data sets 1 Getting Started 1 1 Installing R the Lock5Data package and ggplot2
How do you create a ggplot boxplot?
- To plot a boxplot, you’ll call the ggplot function. Inside the function, you’ll have the data parameter, the x and y parameter (which are typically called inside the aes function). And finally you have the geom_boxplot function. Let’s talk about each of these. The data parameter enables us to specify the dataframe that we want to plot.
What are the advantages of using ggplot2 to create a grouped boxplot?
- The faceting functions in ggplot2 offer a general solution to split up the data by one or more variables and make plots with subsets of data together. To create a grouped boxplot, we can use the facet_wrap () function.
How can I add the number of observations by group to a ggplot2 boxplot?
- This example demonstrates how to annotate the number of observations per group as text labels to each box of a ggplot2 boxplot. To do this, we can apply the annotate function as shown below: By executing the previous R programming code we have managed to create Figure 2, i.e. a ggplot2 boxplot with sample sizes by group.
How do you make a grouped boxplot with jittered data points using ggplot2 in R?
- There is one more way to make a grouped boxplot in the R language using the ggplot2 package. It is to use facet in ggplot. The faceting functions in ggplot2 offer a general solution to split up the data by one or more variables and make plots with subsets of data together. To create a grouped boxplot, we can use the facet_wrap () function.
Package 'grafify"
April 30, 2023
TypePackage
TitleEasy Graphs for Data Visualisation and Linear Models for ANOVADate2023-04-29
Version3.2.0
DescriptionEasily explore data by plotting graphs with a few lines of code. Use these ggplot() wrap- pers to quickly draw graphs of scatter/dots with box-whiskers, violins or SD error bars, data dis- tributions, before-after graphs, factorial ANOVA and more. Cus- tomise graphs in many ways, for example, by choosing from colour blind- friendly palettes (12 discreet, 3 continuous and 2 divergent palettes). Use the sim- ple code for ANOVA as ordinary (lm()) or mixed-effects linear models (lmer()), including ran- domised-block or repeated-measures designs, and fit non-linear outcomes as a generalised addi- tive model (gam) using mgcv(). Obtain estimated marginal means and perform post-hoc compar- isons on fitted models (via emmeans()). Also includes small datasets for practis- ing code and teaching basics before users move on to more complex designs. See vi- gnettes for details on usageLicenseGPL (>= 2)
Importscar, emmeans, Hmisc, lme4, lmerTest, magrittr, mgcv, patchwork, purrr, stats, tidyrDependsR (>= 4.0), ggplot2
EncodingUTF-8
LazyDatatrue
Languageen-GB
RoxygenNote7.2.3
Suggestsdplyr, knitr, rlang, rmarkdown, pbkrtest, testthat (>= 3.0.0)Config/testthat/edition3
NeedsCompilationno
AuthorAvinash R Shenoy [cre, aut] (RepositoryCRAN
Date/Publication2023-04-29 22:40:02 UTC
12Rtopics documented:
Rtopics documented:
data_1w_death . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 3 data_2w_Festing . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4 data_2w_Tdeath . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 4 data_cholesterol . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5 data_doubling_time . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6 data_t_pdiff . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6 data_t_pratio . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 7 data_zooplankton . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 7 ga_anova . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 8 ga_model . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 9 get_graf_colours . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 10 graf_colours . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 11 graf_col_palette . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 11 graf_col_palette_default . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 12 graf_palettes . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 13 make_1way_data . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 14 make_1way_rb_data . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 15 make_2way_data . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 16 make_2way_rb_data . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 17 mixed_anova . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 18 mixed_anova_slopes . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 20 mixed_model . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 21mixed_model_slopes . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 22
plot_3d_scatterbar . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 24
plot_3d_scatterbox . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 27
plot_3d_scatterviolin . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 30
plot_4d_scatterbar . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 33
plot_4d_scatterbox . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 37
plot_4d_scatterviolin . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 40
plot_befafter_box . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 43
plot_befafter_colours . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 46
plot_befafter_shapes . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 49
plot_density . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 52
plot_dotbar_sd . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 53
plot_dotbox . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 56
plot_dotviolin . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 58
plot_gam_predict . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 61
plot_grafify_palette . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 62
plot_histogram . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 63
plot_lm_predict . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 65
plot_logscale . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 66
plot_point_sd . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 68
plot_qqline . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 71
plot_qqmodel . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 72
plot_qq_gam . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 74
plot_scatterbar_sd . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 75
data_1w_death3 plot_scatterbox . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 77
plot_scatterviolin . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 80
plot_xy_CatGroup . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 83
plot_xy_NumGroup . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 85
posthoc_Levelwise . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 88
posthoc_Pairwise . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 89
posthoc_Trends_Levelwise . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 90
posthoc_Trends_Pairwise . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 92
posthoc_Trends_vsRef . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 93
posthoc_vsRef . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 95
scale_colour_grafify . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 96
scale_fill_grafify . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 98
simple_anova . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 100
simple_model . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 101
table_summary . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 102
table_x_reorder . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 103
theme_grafify . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 104
Index106data_1w_deathIn vitro experiments measuring percentage cell death in three geno- types of cells.Description These data are from in vitro measurements of death of host cells (measured as percentage of total cells) after infection with three different strains of a pathogenic bacterium, from five independent experiments. The three strains are three levels within the fixed factor Genotype. The five inde- pendent experiments are levels within the random variable Experiment. These data can be anal- ysed using linear mixed effects modelling. These data are from
Goddard et al, Cell Rep, 2019,
doi.org/10.1016/j.celrep.2019.03.100 Usage data_1w_deathFormat
data.frame: 15 obs. of 3 variables. ExperimentExperiment - a random factor with 5 levels "Exp_1","Exp_2"... GenotypeGenotypes - a fixed factor with 3 levels: "WT","KO_1","KO_2". DeathNumerical dependent variable indicating percentage cell death.4data_2w_Tdeathdata_2w_FestingData from two-way ANOVA with randomised block design of treat-
ments of strains of mice.Description Data from Festing, ILAR Journal (2014) 55, 472-476Format
data.frame: 16 obs. of 4 variables:BlockA random factor with 2 levels "A" and "B".
TreatmentA fixed factor with 2 levels: "Control" & "Treated" StrainA fixed factor with 4 levels: "129Ola", "A/J", "NIH" & "BALB/C"GSTNumerical dependent variable indicating GST activity measurementdata_2w_TdeathIn vitro measurement of percentage cell death - two-way ANOVA de-
sign with repeated measures, and randomised blocks.Description These are measurements of death of infected host cells (as percentage of total cells) upon infection with two strains of bacteria, measured at two time points, in 6 independent experiments. These data repeated-measures data suitable for two-way linear mixed effects modelling with experiment and subjects as random factors. Usage data_2w_Tdeath data_cholesterol5Format
data.frame: 24 obs. of 6 variables: ExperimentA random factor with 6 levels "e1", "e2"... TimeA fixed factor with 2 levels: "t100" & "t300". Time2A numeric column that allows plotting data on a quantitative "Time" axis. The "Time" column has "factor" type values that should be used for the ANOVA.. GenotypeA fixed factor with 2 levels that we want to compare "WT" & "KO". SubjectA random factor with 12 levels: "s1", "s2"... These are cell culture wells that were mea- sured at two time points, and indicate "subjects" that underwent repeated-measures within each of 6 experiments. Subject IDs for WT and KO are unique and clearly indicate different wells. PINumerical dependent variable indicating propidium iodide dye uptake as a measure of celldeath. These are percentage of dead cells out of total cells plated.data_cholesterolHierarchical data from 25 subjects either treated or not at 5 hospitals
- two-way ANOVA design with repeated measures.Description An example dataset on measurements of blood cholesterol levels measured in 5 subjects measuredbefore and after receiving a Drug. Five patients each were recruited at 5 hospitals (a-e), so that there
are 25 different subjects (1-25) measured twice. Data are fromMicro/Immuno Stats
Usage data_cholesterolFormat
tibble: 30 obs. of 3 variables: HospitalFactor with 5 levels (a-e), representing different hospitals where subjects were recruited. SubjectA factor with 25 levels denoting individuals on whom measurements were made twice. TreatmentA factor with 2 levels indicating when measurements were made, i.e. before and after drug. CholesterolNumerical dependent variable indicating measured doubling time in min.6data_t_pdiffdata_doubling_timeDoubling time of E.coli measured by 10 students three independent
times.Description An example dataset showing measurements ofE. colidoubling times (in min) measured by 10 different students in 3 independent experiments each. Note that Experiments are just called Exp1- Exp3 even though Exp1 of any of the students are not connected in anyway - this will confuse R!Data are from
Micro/Immuno Stats
Usage data_doubling_timeFormat
tibble: 30 obs. of 3 variables: StudentFactor with 10 levels, representing different students. ExperimentA factor with 3 levels representing independent experiments.Doubling_timeNumerical dependent variable indicating measured doubling time in min.data_t_pdiffMatched data from two groups where difference between them is con-
sistent.Description An example dataset for paired difference Student"sttest. These are bodyweight (Mass) in grams of same mice left untreated or treated, which are two groups to be compared. The data are in a longtable format, and the two groups are levels within the factor "Condition". The Subject column lists ID of matched mice that were measured without and with treatment. These data are from Sanchez-Garridoet al, Sci Signal, 2018, DOI: 10.1126/scisignal.aat6903. Usage data_t_pdiffFormat
data.frame: 20 obs. of 3 variables: SubjectFactor with 10 levels, denoted by capital letters, representing individuals or subjects. ConditionA fixed factor with 2 levels: "Untreated" & "Treated". MassNumerical dependent variable indicating body mass of micedata_t_pratio7data_t_pratioMatched data from two groups where ratio between them is consistent.Description
An example dataset for paired ratio Student"sttest. These are Cytokine measurements by ELISA (in ng/ml) from 33 independent in vitro experiments performed on two Genotypes that we want to compare. The data are in a longtable format, and the two groups are levels within the factor "Genotype". The Experiment column lists ID of matched experiments. Usage data_t_pratioFormat
data.frame: 66 obs. of 3 variables: GenotypeFactor with 2 levels, representing genotypes to be compared ("WT" & "KO"). ExperimentA random factor with 33 levels representing independent experiments, denoted as "Exp_1", "Exp_2"...CytokineNumerical dependent variable indicating cytokine measured by ELISA.data_zooplanktonTime-series data on zooplankton in lake Menon.Description
Asubsetofdatafrom(LathroRC,2000)(
provided by the Wisconsin Department of Natural Resources Usage data_zooplanktonFormat
tibble: 1127 obs. of 8 variables: dayNumeric integer variable. yearNumeric integer variable of years during which data were collected. lakeThis data is for lake Menona; data for other others not included in this subset. taxonNames of zooplankton taxa as factor of 8 levels. densityNumeric values of density of measurements.8ga_anova
density_adjNumeric values of adjusted density . min_densityNumeric values of minimum densities.desnsity_scaledNumeric value of scaled density.ga_anovaANOVA table from a generalised additive model (gam)Description
The two functionsga_modelandga_anovaare for fitting generalised additive models (gam) with themgcvpackage. It will use thegam()function inmgcvfor ANOVA designs withup to two categorical fixed factors(with two or more levels;Fixed_Factor), andexactly one factor is a continuous variable(e.g. time), which is calledSmooth_Factor. A smooth function is fitted with factor-wise smooth basis function (by =). A default value for number of nodes (the argumentk ingam) may work, but a specific number can be provided using theNodesargument. The model is fit using theREMLmethod. When two categorical fixed factors are provided, an interaction term is included for main effects and smooth basis functions. Usage ga_anova( data,Y_value,
Fixed_Factor,
Smooth_Factor,
Random_Factor = NULL,
Nodes = NULL,
Arguments
dataa data frame where categorical independent variables are converted to factors usingas.factor()first. The function will throw errors without this. Y_valuename of column containing quantitative (dependent) variable, provided within "quotes". Fixed_Factorname(s) of categorical fixed factors (independent variables) provided as a vector if more than one or within "quotes". Convert to factors first withas.factor. Smooth_Factorthe continuous variable to fit smoothly with a basis function, provided within "quotes" (only 1 Smooth_Factor allowed). Random_Factorname(s) of random factors to be provided in "quotes" (only 1 Random_Factor allowed). Convert to factor withas.factorfirst.Nodesnumber of nodes (the parameterkingam).
...any additional variables to pass on togamoranova ga_model9Details
If aRandom_Factoris also provided, it is fitted usingbs = "re"smooth. ValueANOVA table of class "anova" and "data.frame".
Examples
#with zooplankton data ga_anova(data = data_zooplankton,Y_value = "log(density_adj)",
Fixed_Factor = "taxon",
Smooth_Factor = "day")ga_modelFit a generalised additive model (gam)Description The two functionsga_modelandga_anovaare for fitting generalised additive models (gam) with themgcvpackage. It will use thegam()function inmgcvfor ANOVA designs withup to two categorical fixed factors(with two or more levels;Fixed_Factor), andexactly one factor is a continuous variable(e.g. time), which is calledSmooth_Factor. A smooth function is fitted with factor-wise smooth basis function (by =). A default value for number of nodes (the argumentk ingam) may work, but a specific number can be provided using theNodesargument. The model is fit using theREMLmethod. When two categorical fixed factors are provided, an interaction term is included for main effects and smooth basis functions. Usage ga_model( data,Y_value,
Fixed_Factor,
Smooth_Factor,
Random_Factor = NULL,
Nodes = "NULL",
10get_graf_colours
Arguments
dataa data frame where categorical independent variables are converted to factors usingas.factor()first. The function will throw errors without this. Y_valuename of column containing quantitative (dependent) variable, provided within "quotes". Fixed_Factorname(s) of categorical fixed factors (independent variables) provided as a vector if more than one or within "quotes". Convert to factors first withas.factor. Smooth_Factorthe continuous variable to fit smoothly with a basis function, provided within "quotes" (only 1 Smooth_Factor allowed). Random_Factorname(s) of random factors to be provided in "quotes" (only 1 Random_Factor allowed). Convert to factor withas.factorfirst.Nodesnumber of nodes (the parameterkingam).
...any additional variables to pass on togamoranovaDetails
If aRandom_Factoris also provided, it is fitted usingbs = "re"smooth. Value This function gives a generalised additive model object of class "gam", "lm" and "glm".Examples
#fit a model with zooplankton data z1 <- ga_model(data = data_zooplankton,Y_value = "log(density_adj)",
Fixed_Factor = "taxon",
Smooth_Factor = "day")get_graf_coloursGet graf internalDescriptionFunction to make grafify colour scheme.
Thank you Dr Simon
Usage get_graf_colours(...)Arguments
...internal graf_colours11Details
To visualise grafify colours useplot_grafify_palette. ValueThis function returns names and hexcodes of colours in grafify as a character vector.graf_coloursList of hexcodes of colours in grafify palettesDescription
To visualise these colours useplot_grafify_palette.okabe_ito,bright,contrast,dark, light,muted,pale,vibrant,yello_contifrom Paul Tol"spost . Zesty, Pastel, Elegant from this link . Colourhexcodesforfishy,kelly,r4,safe,OrBl_div,PrGn_div,blue_conti,grey_conti taken from cols4all:c4a_gui package. All schemes are colour blind-friendly . Usage graf_coloursFormat
An object of classcharacterof length 154.
Value This is a character vector with names and hexcodes of colours used by palette functions. It is usedbyget_graf_coloursto generate palettes.graf_col_paletteCallgrafifypalettes for scale & fill functionsDescription
is less than that in the palette. This is the default forgrafifywithColoSeq = TRUE. If the numberof colours required is more than that in the discrete palette, it fills intervening colours using the
colorRampPalette [grDevices]function. Usage graf_col_palette(palette = "okabe_ito", reverse = FALSE, ...)12graf_col_palette_default
Arguments
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